Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacaatcgatgaaccatgcatgcatatgcacccttcgtccattcttgtcctcccgagtcccgccgcctgatttctctctgcttgaaacctgaaaacctccgcctccctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGGGCTCCTCCGCCGCACCAGATCGTCGACCTCGCCAAAG

Basic information

species Zea mays
transcript GRMZM2G107003_T01
intron # 1
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211104847|gb|FL162447.1|FL162447
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|20811096|gb|BQ295574.1|BQ295574
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|91055869|gb|EB166287.1|EB166287
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102379|gb|FL162438.1|FL162438
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|91878522|gb|EB408479.1|EB408479
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGG-CCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACG
EST: gi|78120357|gb|DV538741.1|DV538741
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|28985313|gb|BQ538386.2|BQ538386
EST:     GCGTCGCTCCTCNTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: GCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211104845|gb|FL162445.1|FL162445
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|18181536|gb|BM382746.1|BM382746
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211104844|gb|FL162444.1|FL162444
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102374|gb|FL162433.1|FL162433
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|60340068|gb|DN207041.1|DN207041
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|71427417|gb|DR808467.1|DR808467
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211104853|gb|FL162453.1|FL162453
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099900|gb|FL162425.1|FL162425
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|148943626|gb|EC888690.2|EC888690
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|91878521|gb|EB408478.1|EB408478
EST:     TCGTCGCCTTGGTGGGGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|60394563|gb|DN227433.1|DN227433
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|60352937|gb|DN219910.1|DN219910
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102368|gb|FL162427.1|FL162427
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102372|gb|FL162431.1|FL162431
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102369|gb|FL162428.1|FL162428
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211104852|gb|FL162452.1|FL162452
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099895|gb|FL162420.1|FL162420
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|60346486|gb|DN213459.1|DN213459
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|60400373|gb|DN233180.1|DN233180
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|78075699|gb|DV504133.1|DV504133
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|50333926|gb|CO529052.1|CO529052
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211104842|gb|FL162442.1|FL162442
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099898|gb|FL162423.1|FL162423
EST:     GTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: GTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102371|gb|FL162430.1|FL162430
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099894|gb|FL162419.1|FL162419
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099893|gb|FL162418.1|FL162418
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102377|gb|FL162436.1|FL162436
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102375|gb|FL162434.1|FL162434
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211102370|gb|FL162429.1|FL162429
EST:     TCGTCGCCTTGATAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|30031878|gb|CB833729.1|CB833729
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099897|gb|FL162422.1|FL162422
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|211099891|gb|FL162416.1|FL162416
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|71765648|gb|DR963585.1|DR963585
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|60400559|gb|DN233366.1|DN233366
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
EST: gi|71766292|gb|DR964229.1|DR964229
EST:     TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAG                         CTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG
genomic: TCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 3 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 800

CGTCCAGAGGCACAACACACACACCATGGCTCCCAGCAAGCTTGCGGTGGTCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGGGCTCCTCCGCCGCACCAGATCGTCGACCTCGCCAAAG


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 20

CGTCCAGAGGCACAACACACACACCATGGCTCCCAGCAAGCTTGCGGTGGTCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGGGCTCCTCCGCCGCACCAGATCGTCGACCTCGCCAAAG


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 32

CGTCCAGAGGCACAACACACACACCATGGCTCCCAGCAAGCTTGCGGTGGTCGTCGCCTTGGTAGCGTCGCTCCTCCTGCTCACCACCAGCAACACCAAGgtaacacaat ... cctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGGGCTCCTCCGCCGCACCAGATCGTCGACCTCGCCAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgccgcctgatttctctctgcttgaaacctgaaaacctccgcctccctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGGGCTCCTCCGCCGCACCAGATCGTCGACCTCGCCAAAG
    gcctgat  putative branch site (score: 32)
                                   cctccgcctccct  putative PPT
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacacaatcgatgaaccatgcatgcatatgcacccttcgtccattcttgtcctcccgagtcccgccgcctgatttctctctgcttgaaacctgaaaacctccgcctccctgggctagCTTGGCCTGTTCGTGCTCGGCCAGGCTGCTCCGGGCGCCTACCCACCACGGGCTCCTCCGCCGCACCAGATCGTCGACCTCGCCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC