Sequence
atgc intronic sequence ATGC exonic sequence...gagagaggggggtcaaggtcagaaatttggcctcttctcacacatctatttcatgttagatttttttattttttttttgtgatgggattcttctcttcagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
Basic information
species | Glycine max |
transcript | GLYMA01G02760.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------------------gagagaggg----gggtcaaggtcagaaatttggcctcttctcacacatctatttcatgttagatttt--tttattttttttttgtgatgggattcttctctt----cagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
| || | | | ||||||| | | || || | | ||| || |||| | || | | | | ||| | | || || || || ||||||| |||||||||||||| ||||||||||| ||||| || || || || ||||| ||||| || || |||||||
gtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaatgtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 2
gagagaggggggtcaaggtcagaaatttggcctcttctcacacatctatttcatgttagattttttt-attttttttttgtgatgggattcttctcttcagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
| | | | || | | | |||| | || | | | || | | | || || | || | || | | ||| || ||||||| |||||||| ||||||||||||||||| || || || || ||||| ||||||||||||||||| |||||||
caaacttttgttttttggctgtgggtgggaaaaagatttg-acatttgatttaagcaattttgatatgagttcaattatatgtatgtgttgattgatgcagACATAGATGGACTGGAAGATACGAAGCGCATCTATGGGATAACAGCTGTAGGAGGGAAGGTCAAGCCAGAAAAGGACGTCAAG
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 2
gagagaggggggtcaaggtcagaaatttggcctcttctca-cacatctattt-catgttagatttttttattttttttttgtgatgggattcttctcttcagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
| || | ||| ||||| || | | | | || ||| | | ||| ||| | | | | || | ||| ||| | ||||| || ||||||||||||||||| ||||| || || ||||||||||||| || ||||| || ||||||||||
-taacagcattcactgtttcaagtgtttgggttcctgggaacttgttcatcagtgtgtatagggaacaaactagtttattgctttctg-tattgctttgcagACACAGGTGGACGGGTAGATATGAAGCGCATCTGTGGGATAACAGCAGCAGAAGGGAGGGCCAGGCCAGGAAGGGGCGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatttcatgttagatttttttattttttttttgtgatgggattcttctcttcagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
ttcttctcttc CT-rich tract
atgttagattttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagagaggggggtcaaggtcagaaatttggcctcttctcacacatctatttcatgttagatttttttattttttttttgtgatgggattcttctcttcagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
- - - ggggggt
- - - - - - - - - - - - - - - cctcttc
- - - - - - - - - - - - - - - - - - - cacacat
- - - - - - - - - - - - - - - - - - - - - - - - - tcatgtt