Sequence
atgc intronic sequence ATGC exonic sequence...aaacttccacttatgatttctcttttagtgttcactgtctggttacctcctatatgaggaaagcttctcctcaccgatggatttgtttacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 6
aaacttccacttatgatttctcttttagtgttcac-tgtctggttacctcctatatgaggaaagcttctcctcaccgatggatttgtttacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
| || | || ||| || | | ||| | ||| | || ||||| || | || ||| ||| |||| ||||||| |||||| || ||||| |||||||| || || ||||| ||||| ||||| ||||||||||| || |||||||||||||||||||||||||| || ||||
tgtcccttctttttctttaaaacagaagtatttccattactgataaccgcttagtgtaggaatcctggctcatactgatacatt-atttatactgaaacagACTGCTGATGTATGGTCCTGTGGTGTGACTCTATATGTTATGGTAGTTGGTGCATATCCTTTCGAGGATCCAGAAGAGCCTAAGAACTTCCGTAAAACAA
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA07G33120.1 (Glycine max), 3'ss of exon 6
aaacttccacttatgatttctcttttagtgttcactgtctggttacctcctatatgaggaaa-gcttctcctcaccgatggatttgttta-cgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
|| |||||||| || || | | | || |||| | | ||| | | | | || || |||| | | | |||||||| || || ||||| || || || ||| | ||||| ||| | || || |||||||||||||| |||||||| || ||||| || |||||||||||||
-aatgaaaggttatgattactattat-gcatgcatggtctagaactcagctagctttttatttgttactttatactgatgttgacacccaattatgactcagATTGCAGATGTGTGGTCTTGCGGGGTGACCTTATATGTCATGTTGGTGGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGCAAGACAA
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA07G29500.1 (Glycine max), 3'ss of exon 6
aaacttccacttatgatttctcttttagtgttcactgtctggttac----ctcctatatgaggaaagcttctcctcaccgatggatttgtt-tacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
| | | ||| | | | | | ||| || | || | | | | | | | |||| | || ||| | | |||||||| || || ||||| ||||| || ||| | ||||| ||| | || || |||||||||||||| |||||||| || ||||| || ||||| |||||||
-----tagatattagatgttaatgcaaaagattcctggctagctatgcatttttttcttatttagtaatgccttgtattgatgtttccattctactatgattcagATTGCAGATGTGTGGTCTTGTGGGGTGACCTTATATGTCATGTTGGTGGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGGAAGACAA
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA20G01240.1 (Glycine max), 3'ss of exon 6
---aaacttccacttatgatttctcttttagtgttcactgtctggttacctcctatatgaggaaagcttctcctcaccgatggatttgtt-tacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
|| | | ||||||| | | | | | | | || ||| | | ||| | | |||| | || ||| | | |||||||| || || ||||| ||||| || ||| | ||||| ||| | || || |||||||||||||| |||||||| || ||||| || ||||| |||||||
attaatgtgaaagcactgatttcaggctagctatgctttttttttccctttcttatttactaatgccttgt----attgatgtttccattctactatgactcagATTGCAGATGTGTGGTCTTGTGGGGTGACCTTATATGTCATGTTGGTGGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGGAAGACAA
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 6
------aaacttccacttatgatttctcttttagtgttcactgtctggttacctcctatatgaggaaagcttctcctcaccgatggatttgtttacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
|| || ||||| || || | | | || |||| | | || || | || | || | | | | ||| ||| ||||| || || || ||||| ||||| || ||| | ||||| ||| | ||||| |||||||||||||| |||||||| || ||||| || |||||||||||||
gtagtagaatgaaaggttgtgattactgttat-gcatgcatggtctag--aattcagctagctttttatctgttgctaatgtttacactcaattatgac---tcagATAGCAGATGTGTGGTCTTGTGGGGTGACCTTATATGTCATGTTGGTTGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGCAAGACAA
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT5G66880.1 (Arabidopsis thaliana), 3'ss of exon 6
aaacttccacttatgatttctcttttagtgttcactgtctggttacctcctatatgagga-aagcttctcctcaccgatggatttgtttacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
| | || || || ||| || | | | | | | | |||| | | ||| || | | | |||| |||||||| || || |||||||||||||| ||| | || || ||| | ||||| || ||||| || ||||||||||||||||| | ||| || || ||||
------------gtaaaggcttttagagaattc-ctctgtaatctctgtatttctaaggatgaatagccaatcattgagtgttacggttac-------cagATTGCAGATGTATGGTCATGTGGTGTGACCTTATACGTCATGTTGGTTGGAGCGTATCCGTTCGAAGATCCAGAAGAGCCAAGAGACTATCGGAAAACAA
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 6
aaacttccacttatgatt---tctcttttag-tgttcactgtctggttacctcctatatgaggaaagcttctcctcaccgatggatttgtttacgacaaaa-cagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
| || || || || | |||| || || ||| | ||| || | | | || | | | | || || |||| | || |||||||| ||||| ||||||||||| ||||| | ||||| ||| ||||||| |||||||||||||| ||||| || || || ||| ||||||| || ||||
-agttttttattctgcttgagtgtcttccagacacacagtgtttcattatctaattattcaaagaatcaaatttctg--gtttgactt--ttacaaaaatttcagATTGCAGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAAMapped 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|31357636|gb|CD441993.1|CD441993EST: CTGCTTATATTGCACCTGAAGTTTTGTTGAAAAAAGAATATGATGGCAAG ATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGC
genomic: CTGCTTATATTGCACCTGAAGTTTTGTTGAAAAAAGAATATGATGGCAAGgtacttgtgc ... gacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGC
EST:
gi|166683751|gb|EG304308.1|EG304308EST: GTTTTGTTGAAAAAAGAATATGATGGCAAG ATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGC
genomic: GTTTTGTTGAAAAAAGAATATGATGGCAAGgtacttgtgc ... gacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcctatatgaggaaagcttctcctcaccgatggatttgtttacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
tcctcac putative branch site (score: 2)
atttgttta TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacttccacttatgatttctcttttagtgttcactgtctggttacctcctatatgaggaaagcttctcctcaccgatggatttgtttacgacaaaacagATTGCTGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA