Sequence
atgc intronic sequence ATGC exonic sequencegtaatatcagtgtctttgtggcatgtatgttgtattcttctggtcctggccctttcataacatcaatttttttcaccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT
Basic information
species | Glycine max |
transcript | GLYMA07G31350.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G121354_T01 (Zea mays), 3'ss of exon 5
gtaatatcagt--gtctttgtggcatgtatgttgtattcttctggtcctggccctttcataacatcaatttttttcaccagagGT--ATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT---
|| ||| | || | | | |||| | | | | | | | | |||| || | | | |||||||| ||| |||||||||| || |||||||||||||| | ||||| || || |||||||| || ||||||||||| || || | |
gtttgttcatttaacctgaattcagctcttctcctattgataatgcctttgtttactggctaacttaattcaatttataatgtttcagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTTAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGAGAGTGGG
upper sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 8
----gtaatatcagtgtctttgtggcatgtatgttgtattcttctggtcctggccctttcataacatcaattttttt-caccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT---
|| | | | | | | | |||| | | |||| | | | | | ||||| | || | | || |||||||| ||| |||||||||| || |||||||||||||| | ||||| || || |||||||| || ||||||||||| || || | |
gtttgttcttttaatctgaatttcagatgt-tctcctattgataatgcctctgttactggataacttggatcaatgtacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
upper sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
gtaatatcagtgtctttgtggcatgt-atgttgtattcttctggtcctg-------gccctttcataacatcaatttttttcaccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT---
|| | || || ||| | ||| | || ||| | | | | ||| | |||| | | | ||| || | |||||||| || |||| ||||| |||||||| ||||| || |||||||||| ||||| ||||| || || |||||||| ||||||||||| |
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGA---TATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttgtattcttctggtcctggccctttcataacatcaatttttttcaccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT
tcataac putative branch site (score: 2)
tttttttcacc putative PPT
tttcataacatcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatcagtgtctttgtggcatgtatgttgtattcttctggtcctggccctttcataacatcaatttttttcaccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG