Sequence
atgc intronic sequence ATGC exonic sequence...caggactgtcttttttggtatacatactcttcacaaatcacaaccaaattaacgagagtttttacttgtgctgacactatatatggttttgtgtatgcagGGGACTTGGGTCTGGTTAGCGCTTGGAGTTCCAGCAAAAGACCCCAAAAACTTTCCAGAGCCAGAAAAGTTCAAACCAGATAGGTTTGACCCCAACTGTG
Basic information
species | Glycine max |
transcript | GLYMA04G05510.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G26170.2 (Arabidopsis thaliana), 3'ss of exon 4
caggactgtcttttttggtatacatactcttcacaaatcacaaccaaattaacgagagtttttacttgtgctgacactatatatggttttgtgtatgc--agGGGACTTGGGTCTGGTTAGCGCTTGGAGTTCCAGCAAAAGACCCCAAAAACTTTCCAGAGCCAGAAAAGTTCAAACCAGATAGGTTTGACCCCAACTGTG
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-----------------gtatattcaaacccatcaagcgg--attagtccatttacagtcagcacttgtaatc-tattacttaccttgtggttgttgcttagGGGACATGGGTTTGGTTAGCACTAGGAGTTCTAGCAAAGGACCCTAAAAACTTTCCAGAACCGGAGAAGTTCAAGCCGGAAAGATTTGATCCGAACGGAG
upper sequence: GLYMA04G05510.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g01100.t01 (Vitis vinifera), 3'ss of exon 4
caggactgtcttttttggtatacatactcttcacaaatcacaaccaaattaacgagagtttttac-----ttgtgctgacactatatatggttttgtgtatg-----cagGGGACTTGGGTCTGGTTAGCGCTTGGAGTTCCAGCAAAAGACCCCAAAAACTTTCCAGAGCCAGAAAAGTTCAAACCAGATAGGTTTGACCCCAACTGTG
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---------caggccaagttgcagccctggttataacatgtaaatgtgtatgcatgtattcttatacagattagattaacga-gtatatgaacttgtatatatttgtcagGGCACATGGATCTGGTTGGCACCTGGGGTTCTAGCAAAAGATCCAAAAAATTTCCCGGAACCAGACAAGTTCAAGCCAGAGAGGTTTGACCCAAATTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattaacgagagtttttacttgtgctgacactatatatggttttgtgtatgcagGGGACTTGGGTCTGGTTAGCGCTTGGAGTTCCAGCAAAAGACCCCAAAAACTTTCCAGAGCCAGAAAAGTTCAAACCAGATAGGTTTGACCCCAACTGTG
tgctgac putative branch site (score: 2)
tttttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caggactgtcttttttggtatacatactcttcacaaatcacaaccaaattaacgagagtttttacttgtgctgacactatatatggttttgtgtatgcagGGGACTTGGGTCTGGTTAGCGCTTGGAGTTCCAGCAAAAGACCCCAAAAACTTTCCAGAGCCAGAAAAGTTCAAACCAGATAGGTTTGACCCCAACTGTG
- - -ctgtctt
- - - - - - - - - - - catactc
- - - - - - - - - - - - - - - - - - - cacaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacac