Sequence
atgc intronic sequence ATGC exonic sequence...tcatccatccatgaaagccttttagtgtgaaagattaaagtgcagaatttcagtttactaatattgcagcttgatactctttcctcttctgcatttacagCTAAGGACCCCCAAGGTCGATGCTTTGTGCGACCATCTGGCACTGAAGATGTTGTTCGTGTGTATGCTGAGGCATCCACACAGGAAGCAGCTGATACACT
Basic information
species | Glycine max |
transcript | GLYMA07G10810.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G10810.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g09720.1 (Oryza sativa), 3'ss of exon 7
tcatccatccatgaaagccttttagtgtgaaagattaaagtg-----cagaatttcagtttactaatattgcagcttgatactctttcctcttctgcatt----tacagCTAAGGACCCCCAAGGTCGATGCTTTGTGCGACCATCTGGCACTGAAGATGTTGTTCGTGTGTATGCTGAGGCATCCACACAGGAAGCAGCTGATACACT
| | | || | || | || | | | || | || | | ||| || | | |||| | ||||| | | |||| || || | || || ||||| || ||||| |||||||| || || ||||| || ||||| ||||| |||||||| || |||||||||||||| ||
----gtaagtaacatcttctctgagcatataatacttatgtttctttccgacatccgattttct--tggcataaattgaagtgttactgaattctgaggtaccctgcagCAAATTACTCTCATGGGCGATGTTTCGTGCGGCCATCTGGTACCGAGGATGTGGTGCGTGTATATGCAGAGGCATCTTCAGAGGAAGCAGCTGATTGCCT
upper sequence: GLYMA07G10810.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G166597_T01 (Zea mays), 3'ss of exon 8
-------------tcatccatccatgaaagccttttagtgtgaaagattaaagtgcagaatttcagtttacta----atattgcagcttgatactctttcctcttctgcatttacagCTAAGGACCCCCAAGGTCGATGCTTTGTGCGACCATCTGGCACTGAAGATGTTGTTCGTGTGTATGCTGAGGCATCCACACAGGAAGCAGCTGATACACT
|||| |||| | || | | | || || || | ||||||| || || || ||| ||| | | || | |||| || || |||| || |||||||||||||| ||||| || || |||||||| || || ||||| || |||||||| || |||| || |||||| ||
gtaagtaccaacttcattatgtcatgca-gcgtgtgacagttctgcatcgctaccttgaggtctgatttactatgcggtagtgtgact-gatgctcaaatcgcgatgtcact-gcagCCAACTACACCCACGGGCGATGCTTTGTGCGTCCATCCGGTACAGAAGATGTGGTACGGGTGTACGCAGAGGCATCTACGCAGGTAGAAGCTGACGGTCT
upper sequence: GLYMA07G10810.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S211_20V6.1 (Physcomitrella patens), 3'ss of exon 8
tcatccatccatgaaagccttttagtgtgaaa-------gattaa----------------agtgcagaatttcagtttactaatatt--gcagcttgatactctttcctcttctgcatttacagCTAAGGACCCCCAAGGTCGATGCTTTGTGCGACCATCTGGCACTGAAGATGTTGTTCGTGTGTATGCTGAGGCATCCACACAGGAAGCAGCTGATACACT
|| ||||| ||| |||||||| | | | | |||| || | || | | || | | || | || || || || | | ||| ||| | ||| | |||||||||||||| || || ||||| || ||||| |||||||||||||| |||||| || |||||| | |
gtgagtatttgcgaaagatgtttggtgtgaaacttttctaactgagcagcgtctgctccgtaacacagaccttgatttcaagtacttttaggaaattcacaccctatctcatttggatgctgcagAGAAGTATGAGGGAGGAAGGGCTTTTGTGCGACCATCAGGAACCGAAGACGTGGTTCGGGTGTATGCTGAGGCTCAGACACAGAAAATCGCTGATTCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttcagtttactaatattgcagcttgatactctttcctcttctgcatttacagCTAAGGACCCCCAAGGTCGATGCTTTGTGCGACCATCTGGCACTGAAGATGTTGTTCGTGTGTATGCTGAGGCATCCACACAGGAAGCAGCTGATACACT
tactctttcctcttct CT-rich tract
agtttactaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatccatccatgaaagccttttagtgtgaaagattaaagtgcagaatttcagtttactaatattgcagcttgatactctttcctcttctgcatttacagCTAAGGACCCCCAAGGTCGATGCTTTGTGCGACCATCTGGCACTGAAGATGTTGTTCGTGTGTATGCTGAGGCATCCACACAGGAAGCAGCTGATACACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- -tccatcc
- - - - - - - - - - - tagtgtg
- - - - - - - - - - - - - - - - - - aaagtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tattgca