Sequence
atgc intronic sequence ATGC exonic sequencegtatgattgactttctccgagttgtctcttgttatgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatattttatacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
Basic information
species | Glycine max |
transcript | GLYMA07G07610.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 3'ss of exon 4
gtatgattgactttctccgagttgtctcttgttatgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatattttatacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
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--------gtaaatcttcaaa--gccttccaccacctgaaatcttgtgccatgtcctatg---taggttttttttttgtttcaaat-------tttgttttgtcttggaagttgttttttggc---catagtatctaacatatgtat-cgaatttgttttcaatttctcagTTTCGGTGCAGCTATACTCTCCAGACCGTCCTCTGGTTGATACTGCAGAGGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTCTTTGTGCATCATACTG
upper sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G096343_T01 (Zea mays), 3'ss of exon 4
gtatgattgactttctccgagttgtctcttgtta-tgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatattttatacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctcttt----agTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
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----------------gtaaattgtttgtcttcagttccatgctttgtgtcatctctgtgaatacatgggtgcctatgttt--gtttaacttttcatatttttggtaacttgagtattggaaacttattt--tagtgcaaggtagctaacaggctaagttttcctttttttgtcagTCTTAGTGGAGCTGTACTCTCCAGATCGTCCTCTGGTTGATACTGCAGAGGTGTTTCTGTGGCTTATGGCAGTTGGTACCATTCTTTGTGCATCATACTG
upper sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgattgactttctccgagttgtctcttgttatgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatattttatacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
|| | | | ||| | | | | || ||| || | | | || | | || |||| |||| | | | | | ||| | | | || ||| || | | || || || || ||| | | ||| | ||||| || |||||| |||||||| || || || ||||| |||||||||||||| |||||||||||| ||||||||||||
-----------------------gtaattcttcgtataaat-----caaactgtacttccgcatagattgctct---tcttgtattttag---catatcttatcatagtttggcatctctgtgctctctctttttctttgag--ttggtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
upper sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 4
gtatgattgactttctccgagttgtctctt--gttatgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatatttt---atacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
||||| || | || | | || | ||| || || || ||| ||| || | | || || || ||||| | | ||| ||||||||| | | |||| || || | | || || ||| | ||| |||| ||| | | ||| ||||||||||| ||||||| | ||||| | || || |||||| ||||||| ||||| ||||||||||||||| ||| ||||| ||
gtatgctttcccttattctgcatgctttcaaggtttcaaaaatatttcaaatattttctttaattcaccattgctttgttgttcaaatagtttccttgattggtaaatacctgatctag-catgcaaactattttctgtaaactgt-taattatatg---gttccctattcttcagTTGCTGTTCAGCTATACTCTCCAAAGCGTCCACTTGTTGACATAGCTGAGGTGTTTTTGTGGCTCATGGCCGTTGGTACCATTTTATCTGCATCTTACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
ttcctgctcttt CT-rich tract
ttgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgattgactttctccgagttgtctcttgttatgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatattttatacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT