Sequence
atgc intronic sequence ATGC exonic sequencegtattgttgtatgaaagtattgcatagtagttcatgactgaaatcctattccttttaatatgtgcacaatttacaaatagtactgactgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
Basic information
species | Glycine max |
transcript | GLYMA10G36590.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G36590.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g05240.1 (Oryza sativa), 3'ss of exon 10
----------------gtattgttgtatgaaagtattgcatagtagttcatgactgaaatcctattccttttaatatgtgcac-aatttacaaatagtact-----gactgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
||||| ||| | ||| | || ||||| | | || | || || || | | | || | ||| | || | | ||||| || | ||||| || |||||||| |||||||||||||||| || || |||||||| ||||||||||||||||| |||||||| || || |||
gtataaaactagttttgtattattgctccttatcattttttt-tatttcatatcaaacattttgttgctgctacttttcatgctaactagcaatctatgcttttttgtgttgagGTATCCAATCTATGGTGGGATGCAAGACTGGAACTATATACATGGAGGTTGCTTTGAGTTAACCCTGGAAATTAGTGACGTAAAATGGCCAAAGGCAGCT
upper sequence: GLYMA10G36590.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G106683_T02 (Zea mays), 3'ss of exon 10
------gtattgttgtatgaaagtattgcatagtag---ttcatgactgaaatcctat-tccttttaatatgtgcacaatttaca------aatagtactgactg-----cagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
| | | | | | || | |||| || | | | | | | ||| | || |||||| ||| | || | | || || ||||||||| ||||||| || ||||| || |||||||||||||||| ||||| |||||||| || ||||| |||||||| | || ||||| || || | |
gtaaacgaacaatagcaagttcatacttcatatgagatttcctttatctaggtactaggtaggttgtgtatgtgttggctttgaatcaaacaacatcattgcttgtggtccagGTACCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGAT
upper sequence: GLYMA10G36590.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 10
---gtattgttgtatgaaagtattgcatagtagttcatgactgaaatcctattccttttaatatgtgc---acaatt--tacaaatagtactga-ctgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
|||| || | | || || | || | ||| | | ||| ||||| | | || ||||| | ||| | ||| |||||||||||| ||||||| || ||||||||||||||||||||||||| |||||||||||| ||||| ||||| || ||||| || || |||||||| || |
cggttatttttttttttaacaatcaagttgttaaaagt-acttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaaatcctattccttttaatatgtgcacaatttacaaatagtactgactgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
tactgac putative branch site (score: 1)
tattccttttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgttgtatgaaagtattgcatagtagttcatgactgaaatcctattccttttaatatgtgcacaatttacaaatagtactgactgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT