Sequence
atgc intronic sequence ATGC exonic sequence...tccatgcataattgccatatgatatcacatctgttttaaataatcataagattgcatgatctatcctgtttccccaaatattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
Basic information
species | Glycine max |
transcript | GLYMA16G30030.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
tccatgcataattgc-catatgatatca-catctgttttaaat-aatcataagattgcatgatcta-tcctgtttccccaa-atattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
| | ||| || |||||| | | || || | | | |||| | || |||| | | ||| | || || | ||||| || ||| | ||||||| || ||||| |||||||| |||||||||||||||||||| || |||||||| ||||||
----tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcatgatgtt-catgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S8_299V6.1 (Physcomitrella patens), 3'ss of exon 8
tccatgcataattgccatatgatatcacatctgtt-----ttaaataatcataagattgcatgatctatcctgtttccccaaatattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
|| | | || ||| | | || ||| | |||| |||||| || | | | | | | || | | | | ||||||| | | ||||| | || || || ||||||||||| ||||||||||||||||||
ctcaag-acggttaaaatacttctttgcgctccttggttgttagcaattcatggtattgcaaga---gtagggatcttatacttcctgacatac-tgctctgcagATTTCTGCTCAATCTTTTCTCAAGTCCTTTAAGGGAAGCCCGTATTGGATGGCTCCTGAG
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
-tccatgcataattgccatatgatatcacatctgttttaaataatcataagattgcatgatctatcctgtttccccaaatattaacttgcat-attttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
| | | | | | | |||| || || | | | | | || | | |||| || ||| ||| | ||||||| | | ||||| | || || ||||||||||||||||| |||||||||||||||
gtatttttccagtccttggtttttgaaatgctgcttttcgattctctcttgttagaaggtact--ctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S387_39V6.1 (Physcomitrella patens), 3'ss of exon 6
-----tccatgcataattgccatatgatatcacatctgttttaaataatcataagattgcatgatctatcctgtttccccaaatattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
|| | | || | | | | || |||| | | ||| | ||| || ||| | || | | | | | | | ||||||| | | ||||| | || || |||||||||||||||||||||||||||||||||
gttaagtcacgtaggataggccttcgtgttcctcactgtcagcagt--ccatgctgtcgcaagag-tatgg-atctcacgtgctcctggcacgt-tgctctgcagATTTCTGCTCAATCTTTTCTCCAGTCTTTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataagattgcatgatctatcctgtttccccaaatattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
tattaac putative branch site (score: 1)
aaatattaacttgcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccatgcataattgccatatgatatcacatctgttttaaataatcataagattgcatgatctatcctgtttccccaaatattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
-ccatgca
- - - - - - tgccata
- - - - - - - - - - - - - -catctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - tgcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acttgca