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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCACGAGATCTGGACACACTGAGCTGCACGGCAACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtcttgattcctccaatgcaatgtgtcagttgtcatgtacgatgccctgacggatctgcattctcacccgaatagtggatgcccaccagtcac...

Basic information

species Zea mays
transcript GRMZM2G027851_T03
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G027851_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 13
TTCACGAGATCTGGACACACTGAGCTGCACGGCAACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtcttgattcctcc-------aatgcaatgtgtcag-ttgtcatgtacgatgccctgacggatctgcattctcacccgaatagtggatgcccaccagtcac
|| || |||||||| || ||| ||||||||||||| || ||||||||||||||||| |||||||| || || ||||||||||||||||||| ||||  | |  ||       || |||| | |||   || ||||  | | |      ||   |||| |||||||||| || |  |||   |  |       
TTTACAAGATCTGGCCATACTCAGCTGCACGGCAATGCAATAATGATCACCAGCACCATCACTGTCGTTCTTTTTAGCACTATGgtgagtcatcttactgcaacctatgcctaacgcaaagcgtcctcttttcatccaagtttgtgccacatgtctgaattctcaccctaa-acaggacctcagc-------
















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|93281413|gb|EB673677.1|EB673677
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|50333104|gb|CO528230.1|CO528230
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|89755588|gb|DY685957.1|DY685957
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|93282180|gb|EB674444.1|EB674444
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71437105|gb|DR818155.1|DR818155
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|74238598|gb|DT646512.1|DT646512
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|78093452|gb|DV521826.1|DV521826
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71760181|gb|DR958118.1|DR958118
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71761590|gb|DR959527.1|DR959527
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|88750196|gb|DY534337.1|DY534337
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71758416|gb|DR956353.1|DR956353
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|78074782|gb|DV503216.1|DV503216
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|26455862|gb|CA827445.1|CA827445
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|93281414|gb|EB673678.1|EB673678
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|37382323|gb|CF628103.1|CF628103
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|76013009|gb|DT940179.1|DT940179
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|76293702|gb|DV033270.1|DV033270
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|74239374|gb|DT647288.1|DT647288
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|19770144|gb|BQ034865.1|BQ034865
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71427238|gb|DR808288.1|DR808288
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|78115472|gb|DV533860.1|DV533860
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|37399694|gb|CF637180.1|CF637180
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCAATATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71760562|gb|DR958499.1|DR958499
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|71440636|gb|DR821686.1|DR821686
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
EST: gi|78080129|gb|DV508541.1|DV508541
EST:     ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATG                         GTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC
genomic: ACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGC

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 4 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 100

TTCACGAGATCTGGACACACTGAGCTGCACGGCAACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGCAGCAACACGGCCACCTCCGAGCCGTCCTCACCCAAGTCCCTGCACTCGC


Block sizes: 47 (upstream exon), 46 (downstream exon)
Score: 15

TTCACGAGATCTGGACACACTGAGCTGCACGGCAACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGCAGCAACACGGCCACCTCCGAGCCGTCCTCACCCAAGTCCCTGCACTCGC


Block sizes: 41 (upstream exon), 39 (downstream exon)
Score: 12

TTCACGAGATCTGGACACACTGAGCTGCACGGCAACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGCAGCAACACGGCCACCTCCGAGCCGTCCTCACCCAAGTCCCTGCACTCGC


Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 41

TTCACGAGATCTGGACACACTGAGCTGCACGGCAACGCGATAATGATCACCAGCACGATCACTGTGGTCCTGTTTAGCACTATGgtgagtcgtc ... tgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGCAGCAACACGGCCACCTCCGAGCCGTCCTCACCCAAGTCCCTGCACTCGC