Sequence
atgc intronic sequence ATGC exonic sequencegtatagtttttttttttctctcccttaaattatttttttcattgtaaatctggagattgttatgtttccaatttaaaatggttatactaattcttgttctttctgatgagcagTATTATTTAAAGACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCAAAAAATGGAGGTGGATATTTAACCCAAGCTCCATTAAATATTT
Basic information
species | Glycine max |
transcript | GLYMA10G02550.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G02550.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G036837_T02 (Zea mays), 3'ss of exon 3
gtatagtttttttttttctctcccttaaattatttttttcattgtaaatctggagattgttatgtttccaatttaaaatggttatactaattcttgttctttc--tgatgagcagTATTATTTAAAGACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCAAAAAATGGAGGTGGATATTTAACCCAAGCTCCATTAAATATTT---
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---------------ccatgagatgcagggtgcataaatataaaggaatgtaaagattcatgcctgacttgttaactgttggtgctttaccatctgttcttttatttttctatagTATTATTTGAAGACTGGAACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCA---AGATGGATCTGTGCAGTCTGTTATATTAAACAACAATG
upper sequence: GLYMA10G02550.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G47850.2 (Arabidopsis thaliana), 3'ss of exon 3
gtatagtttttttttttctctcccttaaattatttttttcattgtaaatctggagattgttatgtttccaatttaaaatggttatactaattcttgttctttctgatgagcagTATTATTTAAAGACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCAAAAAATGGAGGTGGATATTTAACCCAAGCTCCATTAAATATTT
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-----------gtaacccaccccgaccagtcattttatatgttccaagtgatgaaaca---aggttt----tttg---tgatattattgatctctgct-ttcctg----gcagTTTTACTTGAAAACTGGAACTTGTAAATTTGGGGCGTCATGCAAATTCCACCATCCAAAGAATGCAGGTGGATCCATGAGCCACGTTCCACTAAATATAT
upper sequence: GLYMA10G02550.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------------gtatagtttttttttttctctcccttaaattatttttttcattgtaaatctggag--attgttatg--tttccaatttaaaatggttatactaattcttgttctttctgatgagcagTATTATTTAAAGACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCAAAAAATGGAGGTGGATATTTAACCCAAGCTCCATTAAATATTT
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gtatgttgttgtttgttgactgaatataaaatactggatggggatggaatgcttgatctctaccaatatagattccttggatct---gctagaattgttttcatctacttgtattatgcattattattaaggcttattatcctatacttattaatcgtatagttattcctta-aatatgcagTTTTATTTGAAGACTGGGACCTGTAAATTTGGTGCGTCCTGCAGGTTTCACCATCCAAGAAATGGTGGTGGATCCATGAGCCATGTGTCACTAAATATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatgtttccaatttaaaatggttatactaattcttgttctttctgatgagcagTATTATTTAAAGACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCAAAAAATGGAGGTGGATATTTAACCCAAGCTCCATTAAATATTT
ttcttgttctttct CT-rich tract
aatttaaaatggttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagtttttttttttctctcccttaaattatttttttcattgtaaatctggagattgttatgtttccaatttaaaatggttatactaattcttgttctttctgatgagcagTATTATTTAAAGACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCAAAAAATGGAGGTGGATATTTAACCCAAGCTCCATTAAATATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT